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Plant Physiology 135:2379-2391 (2004)
© 2004 American Society of Plant Biologists

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GENETICS, GENOMICS, AND MOLECULAR EVOLUTION

Gene Expression Profiling of the Tetrapyrrole Metabolic Pathway in Arabidopsis with a Mini-Array System1,[w]

Fuminori Matsumoto, Takeshi Obayashi, Yuko Sasaki-Sekimoto, Hiroyuki Ohta, Ken-ichiro Takamiya and Tatsuru Masuda2,*

Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuta, Midori-ku, Yokohama 226–8501, Japan

Tetrapyrrole compounds, such as chlorophylls, hemes, and phycobilins, are synthesized in many enzymatic steps. For regulation of the tetrapyrrole metabolic pathway, it is generally considered that several specific isoforms catalyzing particular enzymatic steps control the flow of tetrapyrrole intermediates by differential regulation of gene expression depending on environmental and developmental factors. However, the coordination of such regulatory steps and orchestration of the overall tetrapyrrole metabolic pathway are still poorly understood. In this study, we developed an original mini-array system, which enables the expression profiling of each gene involved in tetrapyrrole biosynthesis simultaneously with high sensitivity. With this system, we performed a transcriptome analysis of Arabidopsis seedlings in terms of the onset of greening, endogenous rhythm, and developmental control. Data presented here clearly showed that based on their expression profiles at the onset of greening, genes involved in tetrapyrrole biosynthesis can be classified into four categories, in which genes are coordinately regulated to control the biosynthesis. Moreover, genes in the same group were similarly controlled in an endogenous rhythmic manner but also by a developmental program. The physiological significance of these gene clusters is discussed.

1 This work was supported by a grant from the 21st Century COE Program, Ministry of Education, Culture, Sports, Science and Technology, and by a project titled Development of Fundamental Technologies for Controlling the Process of Material Production of Plants based on funds provided by the Ministry of Ecology, Trade and Industry in Japan.

2 Present address: Department of General Systems Studies, Graduate School of Arts and Sciences, The University of Tokyo, 3–8–1 Komaba, Meguro, Tokyo 153–8902, Japan.

[w] The online version of this article contains Web-only data.

Article, publication date, and citation information can be found at www.plantphysiol.org/cgi/doi/10.1104/pp.104.042408.

* Corresponding author; e-mail tmasuda{at}bio.titech.ac.jp; fax 81–45–924–5823.

Received March 10, 2004; returned for revision April 30, 2004; accepted May 3, 2004.




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